Job ID = 9163630 sra ファイルのダウンロード中... Completed: 657570K bytes transferred in 9 seconds (551990K bits/sec), in 2 files, 3 directories. sra ファイルのダウンロードが完了しました。 Read layout: SINGLE fastq に変換中... Written 10495064 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974679/SRR1948316.sra Written 10495064 spots total Written 10753027 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974679/SRR1948317.sra Written 10753027 spots total fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:45 21248091 reads; of these: 21248091 (100.00%) were unpaired; of these: 824204 (3.88%) aligned 0 times 16189786 (76.19%) aligned exactly 1 time 4234101 (19.93%) aligned >1 times 96.12% overall alignment rate Time searching: 00:03:45 Overall time: 00:03:45 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 8779486 / 20423887 = 0.4299 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Wed, 28 Jun 2017 11:17:46: # Command line: callpeak -t SRX974679.bam -f BAM -g 12100000 -n SRX974679.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX974679.05 # format = BAM # ChIP-seq file = ['SRX974679.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 11:17:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:17:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:17:46: # Command line: callpeak -t SRX974679.bam -f BAM -g 12100000 -n SRX974679.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX974679.20 # format = BAM # ChIP-seq file = ['SRX974679.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 11:17:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:17:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:17:46: # Command line: callpeak -t SRX974679.bam -f BAM -g 12100000 -n SRX974679.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX974679.10 # format = BAM # ChIP-seq file = ['SRX974679.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 11:17:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:17:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:17:52: 1000000 INFO @ Wed, 28 Jun 2017 11:17:52: 1000000 INFO @ Wed, 28 Jun 2017 11:17:52: 1000000 INFO @ Wed, 28 Jun 2017 11:17:58: 2000000 INFO @ Wed, 28 Jun 2017 11:17:58: 2000000 INFO @ Wed, 28 Jun 2017 11:17:59: 2000000 INFO @ Wed, 28 Jun 2017 11:18:04: 3000000 INFO @ Wed, 28 Jun 2017 11:18:04: 3000000 INFO @ Wed, 28 Jun 2017 11:18:05: 3000000 INFO @ Wed, 28 Jun 2017 11:18:11: 4000000 INFO @ Wed, 28 Jun 2017 11:18:11: 4000000 INFO @ Wed, 28 Jun 2017 11:18:11: 4000000 INFO @ Wed, 28 Jun 2017 11:18:17: 5000000 INFO @ Wed, 28 Jun 2017 11:18:17: 5000000 INFO @ Wed, 28 Jun 2017 11:18:17: 5000000 INFO @ Wed, 28 Jun 2017 11:18:23: 6000000 INFO @ Wed, 28 Jun 2017 11:18:23: 6000000 INFO @ Wed, 28 Jun 2017 11:18:23: 6000000 INFO @ Wed, 28 Jun 2017 11:18:29: 7000000 INFO @ Wed, 28 Jun 2017 11:18:29: 7000000 INFO @ Wed, 28 Jun 2017 11:18:29: 7000000 INFO @ Wed, 28 Jun 2017 11:18:35: 8000000 INFO @ Wed, 28 Jun 2017 11:18:35: 8000000 INFO @ Wed, 28 Jun 2017 11:18:36: 8000000 INFO @ Wed, 28 Jun 2017 11:18:41: 9000000 INFO @ Wed, 28 Jun 2017 11:18:41: 9000000 INFO @ Wed, 28 Jun 2017 11:18:42: 9000000 INFO @ Wed, 28 Jun 2017 11:18:47: 10000000 INFO @ Wed, 28 Jun 2017 11:18:48: 10000000 INFO @ Wed, 28 Jun 2017 11:18:48: 10000000 INFO @ Wed, 28 Jun 2017 11:18:53: 11000000 INFO @ Wed, 28 Jun 2017 11:18:54: 11000000 INFO @ Wed, 28 Jun 2017 11:18:55: 11000000 INFO @ Wed, 28 Jun 2017 11:18:57: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:57: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:57: #1 total tags in treatment: 11644401 INFO @ Wed, 28 Jun 2017 11:18:57: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:18:58: #1 tags after filtering in treatment: 11644401 INFO @ Wed, 28 Jun 2017 11:18:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:58: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:58: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:58: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:58: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:58: #1 total tags in treatment: 11644401 INFO @ Wed, 28 Jun 2017 11:18:58: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:18:58: #1 tags after filtering in treatment: 11644401 INFO @ Wed, 28 Jun 2017 11:18:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:58: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:58: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:58: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:58: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 11:18:58: Process for pairing-model is terminated! cat: SRX974679.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX974679.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX974679.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX974679.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 11:18:59: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:59: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 11:18:59: Process for pairing-model is terminated! cat: SRX974679.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX974679.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX974679.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX974679.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 11:18:59: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:59: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:59: #1 total tags in treatment: 11644401 INFO @ Wed, 28 Jun 2017 11:18:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:18:59: #1 tags after filtering in treatment: 11644401 INFO @ Wed, 28 Jun 2017 11:18:59: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:59: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:59: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:19:00: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:19:00: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 11:19:00: Process for pairing-model is terminated! cat: SRX974679.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX974679.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX974679.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX974679.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。